Overview | Package | Class | Use | Tree | Deprecated | Index | Help
PREV NEXT | FRAMES NO FRAMES

## Uses of Class
org.metaqtl.Chromosome

Packages that use Chromosome
org.metaqtl |
org.metaqtl.adapter |
org.metaqtl.algo |
org.metaqtl.graph |
org.metaqtl.main |

Uses of Chromosome in org.metaqtl

Fields in org.metaqtl declared as Chromosome
`Chromosome` | `ChromCluster.ClusterEdge.chrom`

Methods in org.metaqtl that return Chromosome
`Chromosome[]` | `ChromCluster.getClusterMembers()` This method returns the members of the cluster as an array of `Chromosomes`.
`Chromosome` | `Chromosome.getSubChromosome(java.lang.String[] markerNames)`

Methods in org.metaqtl with parameters of type Chromosome
`void` | `ChromCluster.ClusterGraph.addEdge(Chromosome cur1, Chromosome cur2, CMarkerSequence cms)`
`static double[]` | `Chromosome.getDistHeterogeneity(int ncm, int[][] mrkIdx, Chromosome chrom, Chromosome ref)`
`static int` | `Chromosome.getFirstCommonMrkIdx(Chromosome chrom, Chromosome chrom2)`
`static double[]` | `Chromosome.getRecHeterogeneity(int ncm, int[][] mrkIdx, Chromosome chrom, Chromosome ref)`

Constructors in org.metaqtl with parameters of type Chromosome
`ChromCluster.ClusterEdge(CMarkerSequence cms, Chromosome chrom)`

Uses of Chromosome in org.metaqtl.adapter

Methods in org.metaqtl.adapter that return Chromosome
`static Chromosome` | `ChromosomeAdapter.toChromosome(IBioLGroup group, IBioCross crossDesign, int mappingFunction, int mappingUnit)` This method converts a linkage group into a chromosome of type `Chromosome` with the given cross design and the given mapping context.
`static Chromosome[]` | `ChromosomeAdapter.toChromosomes(IBioGenome map)` This methods converts the given map into an array of `Chromosome` which represents the chromosomes of the input mpe.

Methods in org.metaqtl.adapter with parameters of type Chromosome
`static MetaQtlAnalysis` | `MetaQtlAnalysisAdapter.adapt(Chromosome[] chromosomes)`
`static IBioGenome` | `ChromosomeAdapter.toIBioGenome(Chromosome[] chromosomes, int gout)` This routine converts an array of chromosomes into a genetic map with as many chromosomes as the length of the array.

Uses of Chromosome in org.metaqtl.algo

Fields in org.metaqtl.algo declared as Chromosome
`protected Chromosome[]` | `ClustAlgorithm.chromosomes` The chromosome on which the clustering is performed.

Methods in org.metaqtl.algo that return Chromosome
`Chromosome[]` | `QtlProjAlgorithm.getResult()`

Methods in org.metaqtl.algo with parameters of type Chromosome
`static CMarkerSequence` | `CMSAlgorithm.run(Chromosome chrom1, Chromosome chrom2)` This methods find the common marker sequences between the two given chromosomes.

Uses of Chromosome in org.metaqtl.graph

Fields in org.metaqtl.graph declared as Chromosome
`Chromosome` | `ChromGraph.chromosome` The chromosome to draw

Uses of Chromosome in org.metaqtl.main

Methods in org.metaqtl.main that return Chromosome
`static Chromosome[]` | `MetaMain.getChromByNames(Chromosome[] chroms, java.lang.String[] chromNames)`

Methods in org.metaqtl.main with parameters of type Chromosome
`static Chromosome[]` | `MetaMain.getChromByNames(Chromosome[] chroms, java.lang.String[] chromNames)`
`static ChromGraph[]` | `MetaMain.getChromGraph(Chromosome[] chroms, boolean withQtl, int modeQtl, IBioOntology ontology, MetaQtlAnalysis treeAnalysis)`
`static QtlPartition` | `MetaMain.getQtlPartition(Chromosome chromosome, IBioOntology ontology)`
`static QtlPartition` | `MetaMain.getQtlPartition(Chromosome chrom, MetaQtlAnalysis analysis, java.lang.String trait, int k, char tclust)`

Overview | Package | Class | Use | Tree | Deprecated | Index | Help
PREV NEXT | FRAMES NO FRAMES